Volcano plot of Sigma B-dependent differential gene expression of Clostridioides difficile

A customized whole-genome DNA microarray of Clostridioides difficile 630∆erm was used (8x15K format, Agilent). Quadruplicate samples were analysed for the DNA microarray. Using the ULS fluorescent labelling kit for Agilent arrays (Kreatech), 1 µg of total RNA was used for labelling with either Cy3 (P_tet-sigB) or Cy5 (P_tet-sLuc^opt). After pooling and fragmentation, 300 ng of labelled RNA per sample was hybridized according to the two-color microarray protocol from Agilent. DNA microarrays were scanned with an Agilent C scanner and analysed. CDS_ID=GenBank identifier, gene_name=annotated gene name (when available), locus_tag= locus tag, protein=annotation of protein function (when available), log2FC= log 2 of the fold change (sigB overproduction/control), adj_Pvalue = adjusted P-value, significance = -10log(adj_Pvalue).